Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 276 of 344
Found at i:92603297 original size:138 final size:130
Alignment explanation
Indices: 92603065--92603367 Score: 401
Period size: 138 Copynumber: 2.3 Consensus size: 130
92603055 GGCATGATTG
92603065 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATA
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATA
* * * ** * *
92603130 CCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATG-
66 CCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GA
92603194 A
130 A
*
92603195 AATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATTTGAGATGTGTAAGACCATGGTT
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAGACCATGGTT
92603260 GAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
58 GAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
92603325 TGGCAGAA
123 TGACAGAA
* * * *
92603333 AATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92603368 TCACGTCAAA
Statistics
Matches: 150, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
130 37 0.25
135 1 0.01
137 2 0.01
138 110 0.73
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (130 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGTTGAAAGATA
CCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAA
Found at i:92603673 original size:23 final size:25
Alignment explanation
Indices: 92603628--92603674 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
92603618 AATAAATATA
*
92603628 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
92603653 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
92603675 ATGAAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:92605268 original size:42 final size:42
Alignment explanation
Indices: 92605159--92605313 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
92605149 TACCGAGATG
* * *
92605159 TGATTACATGTAAGACCATGTCTGAGACATTTG-CATTGTATT
1 TGATTACATGTAAGACCATATCTGGGACA-TTGACATCGTATT
* * *
92605201 GCGATTACGTGTAAGACCATGTCTGGGACATTGACATCGTATT
1 -TGATTACATGTAAGACCATATCTGGGACATTGACATCGTATT
* * * * *
92605244 TGATTTCATGTAAGACCCTATCTGGGTCAGTGACATCGATATG
1 TGATTACATGTAAGACCATATCTGGGACATTGACATCG-TATT
*
92605287 TGA-TAGCATGTAAGACCACATCTGGGA
1 TGATTA-CATGTAAGACCATATCTGGGA
92605314 TATGGCATTG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 35 0.38
43 58 0.62
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATATCTGGGACATTGACATCGTATT
Found at i:92605310 original size:43 final size:42
Alignment explanation
Indices: 92605210--92605313 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
92605200 TGCGATTACG
** * * **
92605210 TGTAAGACCATGTCTGGGACATTGACATCGTATTTGATTTCA
1 TGTAAGACCACATCTGGGACAGTGACATCGTATGTGATAGCA
*
92605252 TGTAAGACC-CTATCTGGGTCAGTGACATCGATATGTGATAGCA
1 TGTAAGACCAC-ATCTGGGACAGTGACATCG-TATGTGATAGCA
92605295 TGTAAGACCACATCTGGGA
1 TGTAAGACCACATCTGGGA
92605314 TATGGCATTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.49
43 25 0.49
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACAGTGACATCGTATGTGATAGCA
Found at i:92606081 original size:30 final size:30
Alignment explanation
Indices: 92606046--92606106 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
92606036 AGATGATTTG
*
92606046 GGTTATGTGTAAATGTGGATATTAGTTAAA
1 GGTTATGTCTAAATGTGGATATTAGTTAAA
92606076 GGTTATGTCTAAATGTGGATATTAGTTAAA
1 GGTTATGTCTAAATGTGGATATTAGTTAAA
92606106 G
1 G
92606107 TATCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (30 bp):
GGTTATGTCTAAATGTGGATATTAGTTAAA
Found at i:92606991 original size:11 final size:11
Alignment explanation
Indices: 92606975--92607008 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
92606965 TTATAGGCAT
*
92606975 AAGAAGTATAG
1 AAGAAGTAGAG
92606986 AAGAAGTAGAG
1 AAGAAGTAGAG
*
92606997 AAGAATTAGAG
1 AAGAAGTAGAG
92607008 A
1 A
92607009 TCTAATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.15
Consensus pattern (11 bp):
AAGAAGTAGAG
Found at i:92608476 original size:16 final size:16
Alignment explanation
Indices: 92608455--92608488 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92608445 GTGTGGAGAA
*
92608455 TTTTAGCACTTATTTT
1 TTTTAGAACTTATTTT
*
92608471 TTTTAGAACTTGTTTT
1 TTTTAGAACTTATTTT
92608487 TT
1 TT
92608489 AGAGTGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (16 bp):
TTTTAGAACTTATTTT
Found at i:92610413 original size:24 final size:26
Alignment explanation
Indices: 92610368--92610425 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
92610358 TGATTATGAC
*
92610368 AAAAAATTACTTATATTATAAATCCG
1 AAAAAATTACTTATATTATAAACCCG
*
92610394 AAAAAATTA--TATTATT-TAAACCCT
1 AAAAAATTACTTA-TATTATAAACCCG
92610418 AAAAAATT
1 AAAAAATT
92610426 TGAAGTTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 16 0.55
25 4 0.14
26 9 0.31
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.34
Consensus pattern (26 bp):
AAAAAATTACTTATATTATAAACCCG
Found at i:92610734 original size:14 final size:15
Alignment explanation
Indices: 92610701--92610739 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
92610691 TTTATAAAAC
92610701 TTTAT-TTATAAAGGT
1 TTTATATTATAAA-GT
92610716 TTTATATTATAAA-T
1 TTTATATTATAAAGT
92610730 TTTATATTAT
1 TTTATATTAT
92610740 TTTTTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 5 0.22
16 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTATATTATAAAGT
Found at i:92611470 original size:17 final size:17
Alignment explanation
Indices: 92611430--92611476 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
92611420 CCTATTTAGA
*
92611430 AATTAATTTTATCATACT
1 AATTAATTTT-TTATACT
*
92611448 AA-TAATTTTTTATAGT
1 AATTAATTTTTTATACT
92611464 AATTAATATTTTT
1 AATTAAT-TTTTT
92611477 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 11 0.44
18 7 0.28
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTAATTTTTTATACT
Found at i:92616254 original size:80 final size:80
Alignment explanation
Indices: 92616121--92616280 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 80
92616111 GAATTTACTT
* * *
92616121 GAGCTTCCTGAAGAAAATGAAAGCTTCAGGAGAAAGCTCTGATGGGACTAAGGCATGGGAATCAC
1 GAGCTTCCTAAAGAAAATAAAAGCTTCAGGAGAAAGCTCTGATGGGACTAAGGCATGAGAATCAC
92616186 TAATAAGAGCCATAC
66 TAATAAGAGCCATAC
*
92616201 GAGCTTCCTAAAGACAATAAAAGCTTCAGGAGAAAGCTCTGATGGGACTAAGGCATGAGAATCAC
1 GAGCTTCCTAAAGAAAATAAAAGCTTCAGGAGAAAGCTCTGATGGGACTAAGGCATGAGAATCAC
92616266 TAATAAGAGCCATAC
66 TAATAAGAGCCATAC
92616281 TTTCTACAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (80 bp):
GAGCTTCCTAAAGAAAATAAAAGCTTCAGGAGAAAGCTCTGATGGGACTAAGGCATGAGAATCAC
TAATAAGAGCCATAC
Found at i:92616662 original size:19 final size:18
Alignment explanation
Indices: 92616615--92616668 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
92616605 AAAATGATAA
92616615 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT--TTTT
**
92616635 AATTGAGTTAACAATTTTT
1 AATCAAGTTAA-AATTTTT
92616654 AATCAAGTTAAAATT
1 AATCAAGTTAAAATT
92616669 ATTTTAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 9 0.31
21 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTT
Found at i:92616675 original size:20 final size:19
Alignment explanation
Indices: 92616615--92616675 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
92616605 AAAATGATAA
*
92616615 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT-TTTTT
**
92616635 AATTGAGTTAACAA-TTTTT
1 AATCAAGTTAA-AATTTTTT
92616654 AATCAAGTTAAAATTATTTT
1 AATCAAGTTAAAATT-TTTT
92616674 AA
1 AA
92616676 AACAAGTCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 15 0.45
21 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (19 bp):
AATCAAGTTAAAATTTTTT
Found at i:92617796 original size:11 final size:11
Alignment explanation
Indices: 92617780--92617813 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
92617770 CATTCTATTT
92617780 TGTGCACTTGG
1 TGTGCACTTGG
92617791 TGTGCACTTGG
1 TGTGCACTTGG
92617802 TGTGCACTTGG
1 TGTGCACTTGG
92617813 T
1 T
92617814 CTGGATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.09, C:0.18, G:0.35, T:0.38
Consensus pattern (11 bp):
TGTGCACTTGG
Found at i:92620862 original size:23 final size:23
Alignment explanation
Indices: 92620832--92620877 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
92620822 AACACTCATC
92620832 GACATGTAATCAAAGTAACCTGT
1 GACATGTAATCAAAGTAACCTGT
*
92620855 GACATGTAATCGAAGTAACCTGT
1 GACATGTAATCAAAGTAACCTGT
92620878 ACTCTATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (23 bp):
GACATGTAATCAAAGTAACCTGT
Found at i:92620997 original size:12 final size:13
Alignment explanation
Indices: 92620974--92621007 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
92620964 TTCAAATTGT
92620974 AATTCATCAGTTC
1 AATTCATCAGTTC
92620987 AATTCAT-AGTTC
1 AATTCATCAGTTC
*
92620999 AAATCATCA
1 AATTCATCA
92621008 ACTCATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (13 bp):
AATTCATCAGTTC
Found at i:92623562 original size:15 final size:16
Alignment explanation
Indices: 92623542--92623579 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
92623532 TTAATTGAAT
92623542 TAATTAATTTTAA-AA
1 TAATTAATTTTAAGAA
*
92623557 TAATTATTTTTAAGAA
1 TAATTAATTTTAAGAA
*
92623573 TATTTAA
1 TAATTAA
92623580 AAGTTGGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TAATTAATTTTAAGAA
Found at i:92628846 original size:22 final size:22
Alignment explanation
Indices: 92628820--92628891 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
92628810 TAGGATATGC
92628820 TATGATATGTTCTTATATGAAA
1 TATGATATGTTCTTATATGAAA
*
92628842 TATGATATGTTCTGATATG-AA
1 TATGATATGTTCTTATATGAAA
*
92628863 TATGATATGTT-TTGATATGAGA
1 TATGATATGTTCTT-ATATGAAA
92628885 TATGATA
1 TATGATA
92628892 ACCTTCATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 1 0.02
21 18 0.40
22 26 0.58
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (22 bp):
TATGATATGTTCTTATATGAAA
Found at i:92635023 original size:46 final size:45
Alignment explanation
Indices: 92634875--92635079 Score: 163
Period size: 46 Copynumber: 4.4 Consensus size: 45
92634865 TTATTGTGAG
* * *
92634875 CTAGTGTAAGACATGTCAGGGACACGTATCGGCCACATC-ATGA-GAG-
1 CTAGTGTAAGACATGTCTGGGACATGCATC-G--ACATCGA-GACGAGT
* *
92634921 CTAGTGTAAGACCATGTCTGGGACATGGCTTCGACATTGAGACGAGT
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGAGT
* * *
92634968 GCTAGTGTAAGACATGTGTGGGACATGCATCGGCCTCGAGACGTAAGT
1 -CTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACG--AGT
* *
92635016 -TAGTGTAAGACATGTCTAGGACATGCATC-AGC-TACGAGATGAGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGA-CAT-CGAGACGAGT
92635060 C-AGTGTAAGACCATGTCTGG
1 CTAGTGTAAGA-CATGTCTGG
92635080 AGCATGGCAT
Statistics
Matches: 132, Mismatches: 15, Indels: 25
0.77 0.09 0.15
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 62 0.47
47 26 0.20
48 17 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGAGT
Found at i:92642622 original size:46 final size:49
Alignment explanation
Indices: 92642566--92642686 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 49
92642556 CGAGTGCTAG
*
92642566 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA-CGTAAGT-TAA
1 TGTAACACATGTCTGGGACATGCATCGGCCTACGAGAGCGTAAGTGTAA
92642612 TGTAACACATGTCTGGGACATGCATCGG-CTACGAGATGCGTAAGTGTAA
1 TGTAACACATGTCTGGGACATGCATCGGCCTACGAGA-GCGTAAGTGTAA
92642661 -G--AC-CATGTCTGGGACATGGCATCGGC
1 TGTAACACATGTCTGGGACAT-GCATCGGC
92642687 ACAGATATGC
Statistics
Matches: 68, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
45 16 0.24
46 41 0.60
48 8 0.12
49 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (49 bp):
TGTAACACATGTCTGGGACATGCATCGGCCTACGAGAGCGTAAGTGTAA
Found at i:92645523 original size:29 final size:29
Alignment explanation
Indices: 92645460--92645527 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
92645450 TAATCACCCA
* *
92645460 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
92645489 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
92645518 CGCACACTTA
1 CGCACACTTA
92645528 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:92645668 original size:175 final size:175
Alignment explanation
Indices: 92645348--92645675 Score: 507
Period size: 175 Copynumber: 1.9 Consensus size: 175
92645338 AACTCAAGGT
* ** *
92645348 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGCCGCACCCTTCGTGTAAATAATTTATG
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGCCGCACCCTTAATGTAAATAATTTATA
* * *
92645413 GAAAATATATATATTGGGTTGCACACATAATGTTTAGTAATCACCCACGCACACTCAGTGCCATG
66 GAAAATATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTCAGTGCCATG
*
92645478 CACTTTAAACTCACACACTTAGTACCATGCATTTCAAGTTCGCAC
131 CACTGTAAACTCACACACTTAGTACCATGCATTTCAAGTTCGCAC
*
92645523 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGCCGCACCCTTAATGTAAATAATTTAT
* * *
92645588 AG-AAA-ATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCA
65 AGAAAATATATATATTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTCAGTGCCA
*
92645651 TGTACTGTAAACTCACACACTTAGT
129 TGCACTGTAAACTCACACACTTAGT
92645676 GCTGTACAAT
Statistics
Matches: 138, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
174 14 0.10
175 70 0.51
176 54 0.39
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (175 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGCCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTCAGTGCCATG
CACTGTAAACTCACACACTTAGTACCATGCATTTCAAGTTCGCAC
Found at i:92645671 original size:29 final size:30
Alignment explanation
Indices: 92645637--92645708 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
92645627 ATCAACCGCG
*
92645637 CACACTTAGTGCCATGTAC-TGTAAACTCA
1 CACACTTAGTGCCATGTACATGTAAACCCA
* *
92645666 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATGTAAACCCA
92645695 CACACTTAGTGCCA
1 CACACTTAGTGCCA
92645709 ATCTCATGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 29 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATGTAAACCCA
Found at i:92652404 original size:22 final size:22
Alignment explanation
Indices: 92652370--92652439 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
92652360 GATAGGGGAA
* *
92652370 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* *
92652392 GATACGTTCTGATACGAAATAT
1 GATACGCTCTGATATGAAATAT
* * *
92652414 AATATGCTCTGATATGAGATAT
1 GATACGCTCTGATATGAAATAT
92652436 GATA
1 GATA
92652440 AGCTTCAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:92655255 original size:21 final size:19
Alignment explanation
Indices: 92655225--92655268 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
92655215 ATCGAGAACT
92655225 GTTTTAATTTAGTAATCTATG
1 GTTTTAATTTA-TAAT-TATG
* *
92655246 GTTTTTATTTATAATTCTG
1 GTTTTAATTTATAATTATG
92655265 GTTT
1 GTTT
92655269 CATTTAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 10 0.48
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
GTTTTAATTTATAATTATG
Found at i:92655687 original size:22 final size:22
Alignment explanation
Indices: 92655662--92655705 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
92655652 ATGAGGGTAG
92655662 GATATGCTATGATATGAAATAC
1 GATATGCTATGATATGAAATAC
* *
92655684 GATATGCTTTGATATGAGATAC
1 GATATGCTATGATATGAAATAC
92655706 TATAACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
GATATGCTATGATATGAAATAC
Found at i:92658698 original size:12 final size:12
Alignment explanation
Indices: 92658681--92658705 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92658671 TGAATCTTGG
92658681 TGGAAAATTGCT
1 TGGAAAATTGCT
92658693 TGGAAAATTGCT
1 TGGAAAATTGCT
92658705 T
1 T
92658706 TAATGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:92663560 original size:15 final size:15
Alignment explanation
Indices: 92663533--92663570 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
92663523 GTTTAAAATG
*
92663533 AAAT-AATACATAAT
1 AAATAAATAAATAAT
92663547 AAATAAATAAATAAT
1 AAATAAATAAATAAT
*
92663562 AATTAAATA
1 AAATAAATA
92663571 TATATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:92663970 original size:43 final size:42
Alignment explanation
Indices: 92663916--92664029 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 42
92663906 AATAAAACAT
* * *
92663916 AATAAATAATAATATATATAATAAAATAATTTTATAATATATA
1 AATAAATAATAATATATATAATAAAACAA-TTAACAATATATA
*
92663959 ATATAAA-AATAAGGTATA-AAAATAAAACAATTAACAATATATA
1 A-ATAAATAATAA--TATATATAATAAAACAATTAACAATATATA
92664002 AA-AAATATATACATATATAATAATAAAA
1 AATAAATA-ATA-ATATAT-ATAATAAAA
92664030 ATAAACATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
41 3 0.05
42 6 0.10
43 21 0.36
44 24 0.41
45 4 0.07
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.32
Consensus pattern (42 bp):
AATAAATAATAATATATATAATAAAACAATTAACAATATATA
Found at i:92665010 original size:13 final size:13
Alignment explanation
Indices: 92664992--92665018 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92664982 ATGATTCGAA
92664992 GCCTGGAATCACG
1 GCCTGGAATCACG
92665005 GCCTGGAATCACG
1 GCCTGGAATCACG
92665018 G
1 G
92665019 TGTTGATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
GCCTGGAATCACG
Found at i:92665552 original size:4 final size:4
Alignment explanation
Indices: 92665538--92665577 Score: 71
Period size: 4 Copynumber: 9.8 Consensus size: 4
92665528 ATAACATTGA
92665538 AATT AATTT AATT AATT AATT AATT AATT AATT AATT AAT
1 AATT AA-TT AATT AATT AATT AATT AATT AATT AATT AAT
92665578 CTCCTTCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:92667498 original size:27 final size:27
Alignment explanation
Indices: 92667447--92667504 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
92667437 AGTCCAACGA
* *
92667447 GACATTAAACACAAGATAGCCTGATGG
1 GACATTAAACACAAGATAGCATGATAG
* *
92667474 GACATTAAACACGAGATAGTATGATAG
1 GACATTAAACACAAGATAGCATGATAG
92667501 GACA
1 GACA
92667505 CTGAACAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (27 bp):
GACATTAAACACAAGATAGCATGATAG
Found at i:92667511 original size:27 final size:27
Alignment explanation
Indices: 92667447--92667511 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
92667437 AGTCCAACGA
* * *
92667447 GACATTAAACACAAGATAGCCTGATGG
1 GACACTAAACACAAGATAGCATGATAG
* * *
92667474 GACATTAAACACGAGATAGTATGATAG
1 GACACTAAACACAAGATAGCATGATAG
*
92667501 GACACTGAACA
1 GACACTAAACA
92667512 GGGGATGGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (27 bp):
GACACTAAACACAAGATAGCATGATAG
Found at i:92678169 original size:17 final size:16
Alignment explanation
Indices: 92678145--92678181 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
92678135 TATTTTATTT
92678145 ATATATATATTATTAC
1 ATATATATATTATTAC
*
92678161 ATATCATATATTATTAT
1 ATAT-ATATATTATTAC
92678178 ATAT
1 ATAT
92678182 TATTCCCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATATATTATTAC
Found at i:92678179 original size:10 final size:10
Alignment explanation
Indices: 92678122--92678217 Score: 54
Period size: 10 Copynumber: 9.2 Consensus size: 10
92678112 ATCACATCAT
92678122 TTATAT-TTCA
1 TTATATATT-A
*
92678132 TTATATTTTA
1 TTATATATTA
92678142 TTTATATATATA
1 -TTATATAT-TA
*
92678154 TTAT-TACATA
1 TTATATA-TTA
*
92678164 TCATATATTA
1 TTATATATTA
92678174 TTATATATTA
1 TTATATATTA
*
92678184 TTCCCTATATTA
1 TT--ATATATTA
* *
92678196 TCTTTCT-TTA
1 T-TATATATTA
92678206 TTATATATTA
1 TTATATATTA
92678216 TT
1 TT
92678218 TCATTATTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
9 3 0.04
10 36 0.54
11 17 0.25
12 10 0.15
13 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATATATTA
Found at i:92690542 original size:218 final size:218
Alignment explanation
Indices: 92690073--92690645 Score: 870
Period size: 218 Copynumber: 2.6 Consensus size: 218
92690063 GGCTAAAGCA
* * * * *
92690073 TAGCAGATTTGACCTTT-AGGTGTTTACGCTGAAGCATATCCAAGATGATTTGGCATCTCTGTAT
1 TAGCAGATTTG-GCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTAT
* * * * *
92690137 TGTCAGGGAACAAATCGAAAAAACAGATTT-GCAATCACCATATTCGACGGAGAGCAGATCGAAG
65 TGTCAGAGAACAAATCGAAGAAACAGATTTGGC-ATCTCCATATTCGATGGAGAGCAGATCAAAG
92690201 AATAGCAGATCTAACCTTCGGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTG
129 AATAGCAGATCTAACCTTCGGATG-TTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTG
**
92690266 TGTTTACAAGGAGCAGATCGAAGAAG
193 CATTTACAAGGAGCAGATCGAAGAAG
*
92690292 TAGCAGATTTGGCTTTCACGTGTTTGCGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
1 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
92690357 GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGAC
66 GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGA-
*
92690422 ATAGCAGATCTAACCTTCGGATG-TTTGTATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCA
130 ATAGCAGATCTAACCTTCGGATGTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCA
*
92690486 TTTACAAGGAGCAGATCGAAGACG
195 TTTACAAGGAGCAGATCGAAGAAG
* * *
92690510 TAGGAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATTTAAGATGATTTGGCATCTCTGAATT
1 TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
* * *
92690575 GTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATT-G-TCAGAGAGCAGATCAAAG-
66 GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGAT-GGAGAGCAGATCAAAGA
92690637 ATAGCAGAT
130 ATAGCAGAT
92690646 TTGGTGTCTC
Statistics
Matches: 328, Mismatches: 22, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
215 9 0.03
216 1 0.00
217 16 0.05
218 167 0.51
219 110 0.34
220 25 0.08
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (218 bp):
TAGCAGATTTGGCTTTCACGTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTGTATT
GTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCAAAGAA
TAGCAGATCTAACCTTCGGATGTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCAT
TTACAAGGAGCAGATCGAAGAAG
Found at i:92690718 original size:132 final size:131
Alignment explanation
Indices: 92690556--92690917 Score: 571
Period size: 132 Copynumber: 2.7 Consensus size: 131
92690546 GATTTAAGAT
* *
92690556 GATTTGGCATCTCTGAATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGTC
1 GATTTGGCGTCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGTC
* * *
92690621 AGAGAGCAGATCAAAGATAGCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
66 AGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGC
92690686 A
131 A
* *
92690687 GATTTGGCGGTCTCTGTATTGTTAGATAACAAATCGAAGAAATAGATTTGGCATCTCTATATTGT
1 GATTTGGC-GTCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGT
* *
92690752 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTGAGAGAGTAGATCAAAGATAG
65 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAG
92690817 CA
130 CA
* * * * *
92690819 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGATAGCAGATTTGGCATCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTTAGAGAACAAATCGAAGA-AACAGATTTGGCATCTCTATATTGT
*
92690884 CAGAGAGCAGATCGAAGATAACAGATTTGGCGTC
65 CAGAGAGCAGATCGAAGATAGCAGATTTGGCGTC
92690918 CCTGAGTGTG
Statistics
Matches: 212, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
131 35 0.17
132 177 0.83
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (131 bp):
GATTTGGCGTCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTGTC
AGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAGC
A
Found at i:92690937 original size:44 final size:44
Alignment explanation
Indices: 92690556--92690917 Score: 485
Period size: 44 Copynumber: 8.2 Consensus size: 44
92690546 GATTTAAGAT
* * * * * *
92690556 GATTTGGCATCTCTGAATTGTTAGAGAACAAATCGAAGA-AACA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
92690599 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
*
92690643 GATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * * * **
92690687 GATTTGGCGGTCTCTGTATTGTTAGATAACAAATCGAAGA-AATA
1 GATTTGGC-GTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* *
92690731 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
92690775 GATTTGGCGTCTCTGTATTGTGAGAGAGTAGATCAAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
*
92690819 GATTTGGCGTCTCTGTATTGTCAGAGAGCATATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
* *
92690863 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
92690907 GATTTGGCGTC
1 GATTTGGCGTC
92690918 CCTGAGTGTG
Statistics
Matches: 277, Mismatches: 39, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
43 58 0.21
44 192 0.69
45 27 0.10
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:92692765 original size:19 final size:20
Alignment explanation
Indices: 92692741--92692789 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
92692731 TATATTTCAT
*
92692741 TATATTTTATTTATATAT-A
1 TATATTTTATTTACATATCA
92692760 TATATTTTA-TTACATATCA
1 TATATTTTATTTACATATCA
92692779 TATATTATTAT
1 TATATT-TTAT
92692790 ATATTATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 16 0.62
20 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTTATTTACATATCA
Found at i:92692793 original size:10 final size:10
Alignment explanation
Indices: 92692730--92692830 Score: 52
Period size: 10 Copynumber: 10.2 Consensus size: 10
92692720 ATCACATCAT
92692730 TTATAT-TTCA
1 TTATATATT-A
*
92692740 TTATATTTTA
1 TTATATATTA
92692750 TT-TATA-TA
1 TTATATATTA
92692758 -TATATATT-
1 TTATATATTA
*
92692766 TTAT-TACATA
1 TTATATA-TTA
*
92692776 TCATATATTA
1 TTATATATTA
92692786 TTATATATTA
1 TTATATATTA
*
92692796 TTCCCTATATTA
1 TT--ATATATTA
* * *
92692808 TCTTTCTTTTA
1 T-TATATATTA
92692819 TTATATATTA
1 TTATATATTA
92692829 TT
1 TT
92692831 TCATAATTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
7 1 0.01
8 8 0.12
9 8 0.12
10 33 0.48
11 10 0.14
12 8 0.12
13 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:92696295 original size:22 final size:21
Alignment explanation
Indices: 92696250--92696295 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
92696240 AATTATATCT
* *
92696250 TTTAAATATTATCATCTAGAG
1 TTTAAATATGAACATCTAGAG
*
92696271 TTTAAATATGAACTATCTAGGG
1 TTTAAATATGAAC-ATCTAGAG
92696293 TTT
1 TTT
92696296 TCATGTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (21 bp):
TTTAAATATGAACATCTAGAG
Found at i:92700771 original size:103 final size:103
Alignment explanation
Indices: 92700598--92700788 Score: 253
Period size: 103 Copynumber: 1.9 Consensus size: 103
92700588 AAAAATTAAT
* **
92700598 AGTGTGTTGGGCTAAGTAACTAGGGTGGGGTGCTTGGGTTGTCATTCCACTTCGAGTCAAAAAGA
1 AGTGTGTTGGGCTAAGTAACTAGGGTAGGGTGCTTGCATTGTCATTCCACTTCGAGTCAAAAAGA
* *
92700663 ACAAAACATTTTTAAACAAAAAATAATAATAAATTAGG
66 ACAAAAAATTCTTAAACAAAAAATAATAATAAATTAGG
* *
92700701 AGTGTGTTGGGCTGAGTAACT-GAGGTATGGTGCTTGCATTGTCATTCCACTTC-ACGT-AAAAA
1 AGTGTGTTGGGCTAAGTAACTAG-GGTAGGGTGCTTGCATTGTCATTCCACTTCGA-GTCAAAAA
**
92700763 GGGCCAAAAAATTCTTAAACAAAAAA
64 -GAACAAAAAATTCTTAAACAAAAAA
92700789 ATATAAAATT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
102 7 0.09
103 69 0.91
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (103 bp):
AGTGTGTTGGGCTAAGTAACTAGGGTAGGGTGCTTGCATTGTCATTCCACTTCGAGTCAAAAAGA
ACAAAAAATTCTTAAACAAAAAATAATAATAAATTAGG
Found at i:92704734 original size:41 final size:41
Alignment explanation
Indices: 92704636--92704754 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 41
92704626 GTGTGATTCA
* *
92704636 TGTAAGACCATGTCTGGGACATTGGCA-CCAAAGTGAGAAAACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATA-T--GAAAACG
*
92704679 TGTAAGACCATGTCTGGGACATTGGCATCGTATATG-ATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATATGAAAACG
* *
92704720 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATG
92704755 TGATAGCATT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
40 5 0.07
41 32 0.46
42 1 0.01
43 27 0.39
44 2 0.03
45 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAAAACG
Found at i:92713184 original size:139 final size:139
Alignment explanation
Indices: 92713013--92713274 Score: 427
Period size: 139 Copynumber: 1.9 Consensus size: 139
92713003 CTTTTGCCCC
* *
92713013 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTGCACTTTAAGCCAAGCTGAATCATTTTCACA
1 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCAAGCTGAATCATCTTCACA
* *
92713078 ACTATAG-CATCCAACAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTACAATTT
66 ACTATAGAAACCCAA-AATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTACAATTT
92713142 CTTTGCACTT
130 CTTTGCACTT
* *
92713152 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCTAGCTGAATCATCTTCATA
1 TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCAAGCTGAATCATCTTCACA
* * *
92713217 ACTGTAGAAACCCAAAATTCCACTAAATTACACTTTTATGACAAATTTATAATTTTTA
66 ACTATAGAAACCCAAAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTA
92713275 TAAATTAGTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
139 108 0.96
140 5 0.04
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (139 bp):
TATGCTCGTAAAATGATTTTCATTCAATTTCTTTACACTTTAAGCCAAGCTGAATCATCTTCACA
ACTATAGAAACCCAAAATTCCACTAAATCACACTTTTATGACAAATTTATAACTTTTACAATTTC
TTTGCACTT
Found at i:92717406 original size:28 final size:26
Alignment explanation
Indices: 92717357--92717409 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
92717347 ACACATACTT
92717357 AGCCTTATATTCATGTAGTTCATATA
1 AGCCTTATATTCATGTAGTTCATATA
* *
92717383 AGCCTATATATTTCATTTATTTCATAT
1 AGCCT-TATA-TTCATGTAGTTCATAT
92717410 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.22
27 4 0.17
28 14 0.61
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (26 bp):
AGCCTTATATTCATGTAGTTCATATA
Found at i:92719092 original size:31 final size:32
Alignment explanation
Indices: 92719027--92719106 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 32
92719017 TCCATATATG
* * *
92719027 CATATACATTATATATATAATCAAGAGCCACA
1 CATATATATTATATATATAATCAAAACCCACA
92719059 CATATATATTATATATATAA-CAAAACCCACA
1 CATATATATTATATATATAATCAAAACCCACA
*
92719090 CATATGTATTATATATA
1 CATATATATTATATATA
92719107 ATACAACCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 25 0.57
32 19 0.43
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (32 bp):
CATATATATTATATATATAATCAAAACCCACA
Found at i:92725076 original size:32 final size:32
Alignment explanation
Indices: 92725035--92725097 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
92725025 TTTGCAAGAG
92725035 CTCGATCAAATTTTACACCATTAGCGACTATA
1 CTCGATCAAATTTTACACCATTAGCGACTATA
92725067 CTCGATCAAATTTTACACCATTAGCGACTAT
1 CTCGATCAAATTTTACACCATTAGCGACTAT
92725098 GTAATCACTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (32 bp):
CTCGATCAAATTTTACACCATTAGCGACTATA
Found at i:92728546 original size:19 final size:20
Alignment explanation
Indices: 92728504--92728547 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
92728494 AGGGACTAAA
* *
92728504 ATGAAAAGTTGTACAATTTG
1 ATGAAAAATTCTACAATTTG
*
92728524 ATGAAAAATTCTA-AATTTT
1 ATGAAAAATTCTACAATTTG
92728543 ATGAA
1 ATGAA
92728548 TACATCTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTACAATTTG
Found at i:92732868 original size:14 final size:14
Alignment explanation
Indices: 92732849--92732876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92732839 AACTTGTTTG
92732849 ACCAGTTGAAATGT
1 ACCAGTTGAAATGT
92732863 ACCAGTTGAAATGT
1 ACCAGTTGAAATGT
92732877 GCCATTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
ACCAGTTGAAATGT
Found at i:92733110 original size:39 final size:39
Alignment explanation
Indices: 92733064--92733143 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
92733054 AGCATGTATT
*
92733064 TTGACAGGTTTATGGTGGTATTTATAGTTCATATTTTGG
1 TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
* *
92733103 TTGACAGGTTTGTGGTGGTATTTATAGATGATATTTTGG
1 TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
92733142 TT
1 TT
92733144 TACTCTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.28, T:0.49
Consensus pattern (39 bp):
TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
Found at i:92754222 original size:13 final size:13
Alignment explanation
Indices: 92754204--92754228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92754194 CTTGTTTGAC
92754204 CAGTTGAAATGTA
1 CAGTTGAAATGTA
92754217 CAGTTGAAATGT
1 CAGTTGAAATGT
92754229 GCCATTGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (13 bp):
CAGTTGAAATGTA
Found at i:92754460 original size:39 final size:39
Alignment explanation
Indices: 92754414--92754493 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
92754404 AGCATGTATT
*
92754414 TTGACAGGTTTATGGTGGTATTTATAGTTCATATTTTGG
1 TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
* *
92754453 TTGACAGGTTTGTGGTGGTATTTATAGATGATATTTTGG
1 TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
92754492 TT
1 TT
92754494 TACTCTCGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.04, G:0.28, T:0.49
Consensus pattern (39 bp):
TTGACAGGTTTATGGTGGTATTTATAGATCATATTTTGG
Found at i:92766202 original size:46 final size:45
Alignment explanation
Indices: 92766145--92766371 Score: 178
Period size: 46 Copynumber: 4.9 Consensus size: 45
92766135 GGGTTATTGT
* * *
92766145 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGA-
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACA-GA-GAC
* * **
92766191 GAGCCAGTGTAAGACCATGTCTAGGACATGGCTTCGG-TATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCACAGAGAC
* * *
92766237 GAATGCTAGTGTAAGACATGTCTAGAACATGCATCGGCCTC-GAGAC
1 G-A-GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAGAGAC
* * * *
92766283 GTAAGTCAGTGTAAGACATGTCTAGGACATGCATCAGCTAC-GAGAT
1 G--AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAGAGAC
*
92766329 GAGTCAGTGTAAGACCATGTCT-GGAACATGGCATCGG-CACAGA
1 GAGCCAGTGTAAGA-CATGTCTAGG-ACAT-GCATCGGCCACAGA
92766372 TATGCTAGTG
Statistics
Matches: 148, Mismatches: 22, Indels: 22
0.77 0.11 0.11
Matches are distributed among these distances:
44 15 0.10
45 15 0.10
46 71 0.48
47 30 0.20
48 17 0.11
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAGAGAC
Found at i:92767928 original size:73 final size:74
Alignment explanation
Indices: 92767809--92767958 Score: 212
Period size: 73 Copynumber: 2.0 Consensus size: 74
92767799 CTAGTGAAAG
* * * *
92767809 TATGGGTCTAGCTGTACATGCCATAATTGTATATTGATAGTGTGACAACTTCTGACGTTTATAAA
1 TATGGGTCTAGCTATACATGCCACAACTATATATTGATAGTGTGACAACTTCTGACGTTTATAAA
92767874 -ATTATTTT
66 TATTATTTT
* * **
92767882 TATGGGTGTAGCTATACATGCCACAACTATATATTTATAGTGTGACAACTTCTTCCGTTTATAAA
1 TATGGGTCTAGCTATACATGCCACAACTATATATTGATAGTGTGACAACTTCTGACGTTTATAAA
*
92767947 TTTTATTTT
66 TATTATTTT
92767956 TAT
1 TAT
92767959 ATAGTAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 57 0.85
74 10 0.15
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (74 bp):
TATGGGTCTAGCTATACATGCCACAACTATATATTGATAGTGTGACAACTTCTGACGTTTATAAA
TATTATTTT
Found at i:92768887 original size:27 final size:27
Alignment explanation
Indices: 92768857--92769102 Score: 271
Period size: 27 Copynumber: 9.1 Consensus size: 27
92768847 AGTACTCCCA
*
92768857 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
92768884 ATTTACAGAATTATCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
92768911 ATTTTTAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
92768938 ATTTACAGAATTACCATTTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCG
** *
92768965 ATTTACAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
92768992 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
92769019 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
92769046 ATTTACAGAATTACTAG-TTTACCCTC-
1 ATTTACAGAATTAC-CGTTTTACCCTCG
* * *
92769072 AGTTTACAAAATTATCGTTTTACCCTTG
1 A-TTTACAGAATTACCGTTTTACCCTCG
92769100 ATT
1 ATT
92769103 GTGAAATTAC
Statistics
Matches: 183, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 179 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:92768948 original size:81 final size:81
Alignment explanation
Indices: 92768857--92769102 Score: 307
Period size: 81 Copynumber: 3.0 Consensus size: 81
92768847 AGTACTCCCA
* **
92768857 ATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAATTTTTAAAAT
1 ATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCAATTTACAAAAT
*
92768922 TACCATTTTACCCTCG
66 TACCGTTTTACCCTCG
* * * * ** *
92768938 ATTTACAGAATTACCATTTTACCCTTAATTTACAGAATTA-CTATTTTACCCTTGATTTACAGAA
1 ATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATC-GTTTTACCCTCAATTTACAAAA
92769002 TTACCGTTTTACCCTCG
65 TTACCGTTTTACCCTCG
* * * *
92769019 ATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTAG-TTTACCCTCAGTTTACAAAA
1 ATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTA-TCGTTTTACCCTCAATTTACAAAA
* *
92769083 TTATCGTTTTACCCTTG
65 TTACCGTTTTACCCTCG
92769100 ATT
1 ATT
92769103 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 137 0.99
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
ATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCAATTTACAAAAT
TACCGTTTTACCCTCG
Found at i:92769137 original size:27 final size:27
Alignment explanation
Indices: 92769107--92769302 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
92769097 TTGATTGTGA
* *
92769107 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
92769134 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
92769161 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
92769188 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
92769215 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
92769242 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
92769269 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
92769296 AATTACC
1 AATTACC
92769303 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:92769546 original size:27 final size:26
Alignment explanation
Indices: 92769502--92769587 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
92769492 GGAGGAAGCG
* *
92769502 TTCTGGTGGCTATGCCACAAATATCTA
1 TTCTGGTGGCTCTACCAC-AATATCTA
*
92769529 TTCTGGTGGCTCTACCACAATATCTG
1 TTCTGGTGGCTCTACCACAATATCTA
* ** * *
92769555 TATCTGGTGACTCTGTCACGATATCTG
1 T-TCTGGTGGCTCTACCACAATATCTA
92769582 TTCTGG
1 TTCTGG
92769588 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.25
27 38 0.75
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
TTCTGGTGGCTCTACCACAATATCTA
Found at i:92769714 original size:6 final size:6
Alignment explanation
Indices: 92769705--92769891 Score: 154
Period size: 6 Copynumber: 30.8 Consensus size: 6
92769695 TTGCATTCAC
* *
92769705 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
92769754 -TTACTA ATACTG ATTCTG ATTTTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * *
92769802 ATTCTG -TCACCTA ATTTTG ATTTTG ATTCTG ATTCT- ATTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
92769851 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
92769892 CATTTTGGTT
Statistics
Matches: 148, Mismatches: 17, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 12 0.08
6 122 0.82
7 11 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:92769767 original size:30 final size:30
Alignment explanation
Indices: 92769705--92769891 Score: 215
Period size: 30 Copynumber: 6.4 Consensus size: 30
92769695 TTGCATTCAC
* *
92769705 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
92769736 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
92769766 ATTCTGATTTTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* **
92769790 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
* * *
92769821 ATTTTGATTCTGATTCTATTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
92769851 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
92769881 ATTCTGATTCT
1 ATTCTGATTCT
92769892 CATTTTGGTT
Statistics
Matches: 134, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
24 22 0.16
26 1 0.01
29 1 0.01
30 69 0.51
31 41 0.31
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:92769845 original size:85 final size:85
Alignment explanation
Indices: 92769705--92769891 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
92769695 TTGCATTCAC
*
92769705 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTC
*
92769770 TGATTTTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
92769790 ATTCTGATTCTGATTCTGTCACCTAATTTTGATTTTGATTCTGATTCTATTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTC
92769855 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
92769875 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
92769892 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:92773452 original size:41 final size:41
Alignment explanation
Indices: 92773378--92773678 Score: 455
Period size: 41 Copynumber: 7.4 Consensus size: 41
92773368 GCGTTTTTCT
*
92773378 TAAAACGCCGC-AAAAGA-CAGAGCATTAGTGGCGCTTTCGG
1 TAAAACGCCGCTAAAA-ACCAGAGCATTAGCGGCGCTTTCGG
* *
92773418 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTCGA
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
92773459 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGT
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
92773500 TAAAGCGCCGCTAAAAACCAGAGCATTAGCGACGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
*
92773541 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGTGCTTTCGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
92773582 TAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGT
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
* *
92773623 TAAAACGCCGCTAAAAACCAGAGCA-TAGCGACGCTTTTGG
1 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
*
92773663 TAAAACGTCGCTAAAA
1 TAAAACGCCGCTAAAA
92773679 GTCATATAAC
Statistics
Matches: 238, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 39 0.16
41 199 0.84
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (41 bp):
TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
Found at i:92774116 original size:25 final size:25
Alignment explanation
Indices: 92774087--92774140 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
92774077 GTGATTTTGA
92774087 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
92774112 ATGTGGAATTAGCATTTGTTGAACT
1 ATGTGGAATTAGCATTTGTTGAACT
92774137 ATGT
1 ATGT
92774141 ATAATTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (25 bp):
ATGTGGAATTAGCATTTGTTGAACT
Found at i:92774760 original size:15 final size:15
Alignment explanation
Indices: 92774740--92774770 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92774730 TTTAATTTAG
*
92774740 AAGATAAATGTATAT
1 AAGATAAATATATAT
92774755 AAGATAAATATATAT
1 AAGATAAATATATAT
92774770 A
1 A
92774771 TAAATTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:92785957 original size:129 final size:131
Alignment explanation
Indices: 92785815--92786062 Score: 322
Period size: 129 Copynumber: 1.9 Consensus size: 131
92785805 ACTGGGCAAA
* *
92785815 TTAGCGACGTTTTTTAAAAAAACCCCGCTAAAAGTACAGGTCTCTAGCGGCGTTTTTTATAAAAG
1 TTAGCGACGTTTTTTAAAAAAACCCCACTAAAAGTACAGGTCTCTAGCGACGTTTTTTATAAAAG
*
92785880 CGCCGCTAAAGGTCCTGA-TCTCTAGCGGCG-TTTTT-TAAAAAAGCGCCGCTAAAAGTACAGGT
66 CGCCGCTAAAGGT-CTGAGTCTCTAGCGGCGTTTTTTCTAAAAAAACGCCGCTAAAAGTACAGGT
92785942 AT
130 AT
* * * * * * * * *
92785944 TTAGCGGCGTTTTTTATAAGAGCGCCACTAAAGGTCCTGGTCTTTAGCGACGTTTTTTATAAAAG
1 TTAGCGACGTTTTTTAAAAAAACCCCACTAAAAGTACAGGTCTCTAGCGACGTTTTTTATAAAAG
* * * *
92786009 CGCCGCTAAAGGTCTTAGTCTTTAGCGGTGTTTTTTCTAAAAAAATGCCGCTAA
66 CGCCGCTAAAGGTCTGAGTCTCTAGCGGCGTTTTTTCTAAAAAAACGCCGCTAA
92786063 GTTTTGTGGC
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
128 3 0.03
129 77 0.77
130 5 0.05
131 15 0.15
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (131 bp):
TTAGCGACGTTTTTTAAAAAAACCCCACTAAAAGTACAGGTCTCTAGCGACGTTTTTTATAAAAG
CGCCGCTAAAGGTCTGAGTCTCTAGCGGCGTTTTTTCTAAAAAAACGCCGCTAAAAGTACAGGTA
T
Found at i:92786019 original size:43 final size:43
Alignment explanation
Indices: 92785815--92786050 Score: 274
Period size: 43 Copynumber: 5.5 Consensus size: 43
92785805 ACTGGGCAAA
* * * * * * *
92785815 TTAGCGACGTTTTTTAAAAAAACCCCGCTAAAAGTACAGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
92785858 CTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGATCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * * * * *
92785901 CTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTAT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
92785944 TTAGCGGCGTTTTTTATAAGAGCGCCACTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* * *
92785987 TTAGCGACGTTTTTTATAAAAGCGCCGCTAAAGGTCTTAGTCT
1 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
* *
92786030 TTAGCGGTGTTTTTTCTAAAA
1 TTAGCGGCGTTTTTTATAAAA
92786051 AAATGCCGCT
Statistics
Matches: 162, Mismatches: 31, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:92786033 original size:86 final size:86
Alignment explanation
Indices: 92785815--92786050 Score: 323
Period size: 86 Copynumber: 2.7 Consensus size: 86
92785805 ACTGGGCAAA
* * *
92785815 TTAGCGACGTTTTTTAAAAAAACCCCGCTAAAAGTACAGGTCTCTAGCGGCGTTTTTTATAAAAG
1 TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
*
92785880 CGCCGCTAAAGGTCCTGATCT
66 CGCCACTAAAGGTCCTGATCT
* * * *
92785901 CTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTATTTAGCGGCGTTTTTTATAAGAG
1 TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
*
92785966 CGCCACTAAAGGTCCTGGTCT
66 CGCCACTAAAGGTCCTGATCT
* * * *
92785987 TTAGCGACGTTTTTTATAAAAGCGCCGCTAAAGGT-CTTA-GTCTTTAGCGGTGTTTTTTCTAAA
1 TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTAC--AGGTCTTTAGCGGCGTTTTTTATAAA
92786050 A
64 A
92786051 AAATGCCGCT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.01
86 129 0.98
87 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (86 bp):
TTAGCGACGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTTTAGCGGCGTTTTTTATAAAAG
CGCCACTAAAGGTCCTGATCT
Found at i:92788743 original size:20 final size:20
Alignment explanation
Indices: 92788706--92788748 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
92788696 AAGGACTATA
92788706 TTGTATAAGTTGTAAAATAG
1 TTGTATAAGTTGTAAAATAG
* *
92788726 TTGT-TAAGTATGTGAAATTG
1 TTGTATAAGT-TGTAAAATAG
92788746 TTG
1 TTG
92788749 GAATTTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (20 bp):
TTGTATAAGTTGTAAAATAG
Found at i:92789403 original size:46 final size:46
Alignment explanation
Indices: 92789279--92789405 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 46
92789269 AGAGCTAGTC
* * *
92789279 CAGTGTAAGATCATGTCTAGGACATGGCATTGGCATTGAGATGAGTA
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGATGAGTA
*
92789326 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TACGAGATGTGT-
1 C-AGTGTAAGACATGTCTGGGACATGGCATCGGCAT-CGAGATGAGTA
*
92789371 CAGTGTAAAACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
92789406 CAGATATGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 8 0.11
45 16 0.23
46 23 0.33
47 14 0.20
48 9 0.13
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGATGAGTA
Found at i:92795866 original size:22 final size:22
Alignment explanation
Indices: 92795832--92795901 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
92795822 ATAGGGGTAA
* *
92795832 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* **
92795854 GATACGTTCTGATGCGAAATAT
1 GATACGCTCTGATATGAAATAT
* * * *
92795876 AATATGCTCTAATATGAGATAT
1 GATACGCTCTGATATGAAATAT
92795898 GATA
1 GATA
92795902 AGCTTCAATA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:92796813 original size:22 final size:23
Alignment explanation
Indices: 92796778--92796829 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
92796768 ATGTAAGCTT
*
92796778 TGTTTGTACAAAATTATGTGTTA
1 TGTTTATACAAAATTATGTGTTA
92796801 TGTTTATA-AAAATTATGTGTTA
1 TGTTTATACAAAATTATGTGTTA
92796823 TGTTTAT
1 TGTTTAT
92796830 GATCCGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (23 bp):
TGTTTATACAAAATTATGTGTTA
Found at i:92799181 original size:22 final size:22
Alignment explanation
Indices: 92799128--92799187 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
92799118 ATGGGGGTAG
*
92799128 GATATGCTATGATATGAAATAC
1 GATATGCTTTGATATGAAATAC
*
92799150 GATATGCTTTGATATGAGATAC
1 GATATGCTTTGATATGAAATAC
92799172 GATAAT-CTTTGATATG
1 GAT-ATGCTTTGATATG
92799188 TTATATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (22 bp):
GATATGCTTTGATATGAAATAC
Found at i:92800049 original size:10 final size:11
Alignment explanation
Indices: 92800024--92800050 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
92800014 CCCTGCATAT
92800024 TTTTTGAAAAG
1 TTTTTGAAAAG
92800035 TTTTTGAAAAG
1 TTTTTGAAAAG
92800046 TTTTT
1 TTTTT
92800051 TCTGCCTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (11 bp):
TTTTTGAAAAG
Found at i:92800856 original size:25 final size:25
Alignment explanation
Indices: 92800828--92800883 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
92800818 AAGAGTCACC
92800828 TCATTCCCTATACTCAAACCATCTA
1 TCATTCCCTATACTCAAACCATCTA
92800853 TCATTCCCTATACTCAAACCATCTA
1 TCATTCCCTATACTCAAACCATCTA
92800878 TCATTC
1 TCATTC
92800884 TACCAAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.34
Consensus pattern (25 bp):
TCATTCCCTATACTCAAACCATCTA
Found at i:92802771 original size:12 final size:12
Alignment explanation
Indices: 92802754--92802778 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92802744 TGAATCTTGG
92802754 TGGAAAATTGCT
1 TGGAAAATTGCT
92802766 TGGAAAATTGCT
1 TGGAAAATTGCT
92802778 T
1 T
92802779 CAATGGTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:92807127 original size:27 final size:28
Alignment explanation
Indices: 92807096--92807159 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
92807086 ATTTACTAGA
*
92807096 ATACCCCTATGTATGCAAAATTA-CATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
92807123 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
92807151 ATACCCCTA
1 ATACCCCTA
92807160 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:92807305 original size:28 final size:29
Alignment explanation
Indices: 92807264--92807326 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
92807254 AGGAAGCGTC
*
92807264 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
92807292 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
92807321 CTGGTG
1 CTGGTG
92807327 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:92807337 original size:29 final size:28
Alignment explanation
Indices: 92807274--92807337 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
92807264 CTGGTGGCTA
* *
92807274 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
92807302 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
92807331 TGTCACA
1 TGCCACA
92807338 TTTTTGTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:92807804 original size:19 final size:19
Alignment explanation
Indices: 92807780--92807818 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92807770 TTTTAATTAT
* *
92807780 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
92807799 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
92807818 T
1 T
92807819 ATGAGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:92808420 original size:11 final size:10
Alignment explanation
Indices: 92808392--92808425 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
92808382 AGCCTGTAAG
92808392 TATTCTGAAT
1 TATTCTGAAT
*
92808402 TTTTCTGAAT
1 TATTCTGAAT
92808412 ATATTCTGAAT
1 -TATTCTGAAT
92808423 TAT
1 TAT
92808426 CTGTTGTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:92814947 original size:28 final size:28
Alignment explanation
Indices: 92814915--92814979 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
92814905 ATTTACTAGA
* *
92814915 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATACAAAATGACCATT
* *
92814943 ATACCCCTATGTATACTAAATGACCTTT
1 ATACCCCTATGTATACAAAATGACCATT
92814971 ATACCCCTA
1 ATACCCCTA
92814980 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATACAAAATGACCATT
Found at i:92815126 original size:28 final size:29
Alignment explanation
Indices: 92815085--92815147 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
92815075 AGGAAGCGTC
*
92815085 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
92815113 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
92815142 CTGGTG
1 CTGGTG
92815148 ACTTTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:92815635 original size:19 final size:19
Alignment explanation
Indices: 92815611--92815649 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
92815601 TTTTAATTAT
* *
92815611 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
92815630 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
92815649 T
1 T
92815650 ATGACGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:92822453 original size:17 final size:17
Alignment explanation
Indices: 92822422--92822454 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92822412 CTAATATATG
*
92822422 TATATATTGTATATTTA
1 TATATATTATATATTTA
92822439 TATATATTATATATTT
1 TATATATTATATATTT
92822455 TTAATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATATATTATATATTTA
Found at i:92822783 original size:3 final size:3
Alignment explanation
Indices: 92822769--92822852 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
92822759 GTATTTTTAC
*
92822769 TAT TAT TGT TAT TAT TAT TAT TAT T-T TAT T-T TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* *
92822813 T-T TTT GTAT ATAT TAT TCAT CCTAT CAT TAT TA- TAT TAT T
1 TAT TAT -TAT -TAT TAT T-AT --TAT TAT TAT TAT TAT TAT T
92822853 TTTACGACTG
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 8 0.12
3 45 0.68
4 10 0.15
5 2 0.03
6 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:92822826 original size:23 final size:23
Alignment explanation
Indices: 92822780--92822826 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
92822770 ATTATTGTTA
*
92822780 TTATTATTATTATTTTATTTTAT
1 TTATTATTATTATTTTATTATAT
*
92822803 TTATTATTATT-TTTTGTATATAT
1 TTATTATTATTATTTTAT-TATAT
92822826 T
1 T
92822827 ATTCATCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTATTATTATTATTTTATTATAT
Found at i:92822829 original size:26 final size:23
Alignment explanation
Indices: 92822771--92822817 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
92822761 ATTTTTACTA
92822771 TTATTGTTA-TTATTATTATTATT
1 TTATT-TTATTTATTATTATTATT
92822794 TTATTTTATTTATTATTATT-TT
1 TTATTTTATTTATTATTATTATT
92822816 TT
1 TT
92822818 GTATATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTTTATTTATTATTATTATT
Found at i:92835359 original size:75 final size:75
Alignment explanation
Indices: 92835266--92835404 Score: 224
Period size: 75 Copynumber: 1.9 Consensus size: 75
92835256 TTCTGTTTTC
* * *
92835266 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
92835331 GGTCTTTCAA
66 GGTCTTTCAA
** *
92835341 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
92835405 CTGTTTTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTT
GGTCTTTCAA
Found at i:92835502 original size:90 final size:88
Alignment explanation
Indices: 92835341--92835557 Score: 230
Period size: 88 Copynumber: 2.5 Consensus size: 88
92835331 GGTCTTTCAA
*
92835341 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGCTATTTTCAATTTC
*
92835406 TGTTTTTTCAATTTATATTTTTC
66 TATTTTTTCAATTTATATTTTTC
* * * *
92835429 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCT-TGGCTCACGTGCTGAGCTATTTTCAA-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGCTATTTTCAAT
* * *
92835492 TTC-ATATTTTT-AATGTCTGTTTTT-
63 TTCTAT-TTTTTCAATTTATATTTTTC
* * **
92835516 AAAGATTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGA
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
92835558 TCATATACTG
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
87 7 0.07
88 77 0.72
89 8 0.07
90 15 0.14
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGCTATTTTCAATTTC
TATTTTTTCAATTTATATTTTTC
Found at i:92845057 original size:30 final size:30
Alignment explanation
Indices: 92845011--92845134 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
92845001 TTTTATTATG
*
92845011 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
92845042 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
92845072 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
92845102 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
92845132 CCA
1 CCA
92845135 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:92845066 original size:15 final size:15
Alignment explanation
Indices: 92845021--92845128 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
92845011 CCAATATCTC
92845021 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
92845036 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
92845051 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
92845066 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
92845081 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
92845096 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
92845111 GATACCCATATCTTT
1 GATACCCATATCTTT
92845126 GAT
1 GAT
92845129 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:92849752 original size:30 final size:30
Alignment explanation
Indices: 92849702--92849825 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
92849692 TTTTATTATG
*
92849702 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
92849733 CCAATATTTGATACACATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
92849763 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
92849793 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
92849823 CCA
1 CCA
92849826 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:92855964 original size:3 final size:3
Alignment explanation
Indices: 92855956--92856053 Score: 74
Period size: 3 Copynumber: 32.0 Consensus size: 3
92855946 CAACCAACAA
** * *
92855956 AAT AAT AAT AA- AGG AAT AAT AAT CAT AAT TAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * *
92856001 AGT AAT AA- ATAT AAT GAAT AAT AAC AGT AAT AAT AAT AAT GAAG AAT
1 AAT AAT AAT A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
92856048 AAT AAT
1 AAT AAT
92856054 TAAAAATAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 64 0.86
4 8 0.11
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:92856343 original size:19 final size:19
Alignment explanation
Indices: 92856311--92856352 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
92856301 GGGAGAAAAG
92856311 GAAAGAAAGAGGAAAGAAA
1 GAAAGAAAGAGGAAAGAAA
*
92856330 GAAAGGAAAG-GGAAGGAAA
1 GAAA-GAAAGAGGAAAGAAA
92856349 GAAA
1 GAAA
92856353 ATGAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAGGAAAGAAA
Found at i:92860688 original size:389 final size:388
Alignment explanation
Indices: 92859930--92860695 Score: 1112
Period size: 389 Copynumber: 2.0 Consensus size: 388
92859920 ATGGTCACTA
* * * * *
92859930 AACTAACTAAAAATTTGACTGAGGCAAGATCGCCTATTGAACAGTAGTATAGTTATGGTTAGACC
1 AACTAACTAAAAATTCGACTAAGGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
92859995 GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
66 GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
* * *
92860060 CAATTAAGAGAATGTTTTAAACTAAGACAAATTATCTAATTAGCTAAAATTACGACAGATATTAA
131 CAATTAAGAGAATGTTTTAAACTAAAACAAATTATCTAATTAGCTAAAATTACGACAAAGATTAA
** *
92860125 AGTTGGAAAATACTTTTTAGAAAACCGATGGAAAAGACAATACCCAAGGAAGAATCCACCTAGAC
196 AGTTGGAAAATACTTTGGAGAAAACCGATGGAAAAGACAATACCCAAGGAACAATCCACCTAGAC
* * ** * *
92860190 TTCACTTATCACTTCTGAATTAGACGATTTATTCACTTGACTTAATCTGTATAAATCCCTGATTT
261 TTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCATAGAAATCCCTAATTT
92860255 ATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCATGT
326 ATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCATGT
*
92860318 AACTAACTAAAAATTCGACTTAAGGCGAGCA-CACCTATCGAACAGTAGTATAGTTATGGTGAGA
1 AACTAACTAAAAATTCGAC-TAAGGCAAG-ATCACCTATCGAACAGTAGTATAGTTATGGTGAGA
* *
92860382 CCGGAAATATCGTATCCATGAA-GAGTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCC
64 CCGGAAATATCGTATCCA-CAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCC
* ** * * *
92860446 TAAGAATTAAG-GTGTGTTTTTAAACTAAAACTATTTATCTAATT-GACTAAGATTACGACAAAG
128 TAACAATTAAGAGAATG-TTTTAAACTAAAACAAATTATCTAATTAG-CTAAAATTACGACAAAG
* * *
92860509 A-TGAAGTTTGGAAAATACTTTGG-GAAAAACTGATGGAGAAGACAATACCCAAGGAACAATCCA
191 ATTAAAG-TTGGAAAATACTTTGGAG-AAAACCGATGGAAAAGACAATACCCAAGGAACAATCCA
* *
92860572 CCTAGACTTCACTTATTACTTCTGAATTAGATAATTTATTCACTTAACTTAATCCATAGAAATCC
254 CCTAGACTTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCATAGAAATCC
* * * *
92860637 CTAATTTATGTTAATATCTCTCTCGAGACTAAGAATAACTGACTTTAGGTTGATTAATT
319 CTAATTTATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATT
92860696 AAAATCTCTT
Statistics
Matches: 336, Mismatches: 35, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
388 27 0.08
389 306 0.91
390 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (388 bp):
AACTAACTAAAAATTCGACTAAGGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
CAATTAAGAGAATGTTTTAAACTAAAACAAATTATCTAATTAGCTAAAATTACGACAAAGATTAA
AGTTGGAAAATACTTTGGAGAAAACCGATGGAAAAGACAATACCCAAGGAACAATCCACCTAGAC
TTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCATAGAAATCCCTAATTT
ATGTTAATATCTCTCTCAAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCATGT
Found at i:92865054 original size:11 final size:11
Alignment explanation
Indices: 92865038--92865084 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
92865028 TTATTTACAA
92865038 AATCATATATT
1 AATCATATATT
92865049 AATCATATATT
1 AATCATATATT
** *
92865060 -ATTTTAAATTT
1 AATCATATA-TT
92865071 AATCATATATT
1 AATCATATATT
92865082 AAT
1 AAT
92865085 TCTGAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (11 bp):
AATCATATATT
Found at i:92869820 original size:31 final size:30
Alignment explanation
Indices: 92869767--92869838 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
92869757 TGCATATACG
* * *
92869767 TTATATATATAATAAGAACCACACATATATA
1 TTATATATA-AAAAAAAACCACACACATATA
*
92869798 TTATATATAAAAAAAAACCCACACACATGTA
1 TTATATATAAAAAAAAA-CCACACACATATA
*
92869829 TTAAATATAA
1 TTATATATAA
92869839 TACAACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (30 bp):
TTATATATAAAAAAAAACCACACACATATA
Found at i:92872291 original size:31 final size:32
Alignment explanation
Indices: 92872253--92872327 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 32
92872243 CATTAAATCT
*
92872253 AACCAAAAACAGCAAATATAGCAT-AAAATGC
1 AACCAAAAACAGCAAATATAGCATAAAAATAC
* *
92872284 AACCAAAAACAGCAAATTTCGCATAAAAAATAC
1 AACCAAAAACAGCAAATATAGCAT-AAAAATAC
92872317 AACCAAAAACA
1 AACCAAAAACA
92872328 TTAATTCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
31 22 0.56
33 17 0.44
ACGTcount: A:0.60, C:0.21, G:0.07, T:0.12
Consensus pattern (32 bp):
AACCAAAAACAGCAAATATAGCATAAAAATAC
Found at i:92873046 original size:13 final size:14
Alignment explanation
Indices: 92873020--92873048 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
92873010 ACTAATGACG
92873020 AATTAAACCATTAT
1 AATTAAACCATTAT
92873034 AATTAAA-CATTAT
1 AATTAAACCATTAT
92873047 AA
1 AA
92873049 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:92876375 original size:12 final size:12
Alignment explanation
Indices: 92876360--92876385 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92876350 ATCATCCTCT
92876360 TCATCAGATTCA
1 TCATCAGATTCA
92876372 TCATCAGATTCA
1 TCATCAGATTCA
92876384 TC
1 TC
92876386 CCTCGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:92892839 original size:46 final size:44
Alignment explanation
Indices: 92892687--92892895 Score: 145
Period size: 46 Copynumber: 4.5 Consensus size: 44
92892677 ATTGTGAGCT
* * * *
92892687 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-A-AGTC
** * * **
92892733 AGTGTAAGACCATGTCTCAGACATGGCTTCAGC-ATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGATAAGT-C
*
92892780 TAGTGTAATACATGTCTGGGACATGCATCAGCCT-CGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGA--TAAGTC
* * *
92892827 AGTTTAAGACATGTCTAGGACATGCATCAGCTACGAGATGAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAAGTC
* *
92892871 AGTGTAATACCATGTCTGGAACATG
1 AGTGTAAGA-CATGTCTGGGACATG
92892896 ACATTGGCAC
Statistics
Matches: 127, Mismatches: 24, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
44 12 0.09
45 15 0.12
46 53 0.42
47 28 0.22
48 18 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAAGTC
Found at i:92898846 original size:39 final size:40
Alignment explanation
Indices: 92898689--92898860 Score: 267
Period size: 40 Copynumber: 4.3 Consensus size: 40
92898679 GCTCCTCGTT
* * *
92898689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
92898729 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
92898769 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
92898809 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
92898848 CAAATGCCTTCGG
1 CAAATGCCTTCGG
92898861 ATCTTAGTCC
Statistics
Matches: 125, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
39 35 0.28
40 88 0.70
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:92898873 original size:79 final size:79
Alignment explanation
Indices: 92898689--92898912 Score: 269
Period size: 79 Copynumber: 2.8 Consensus size: 79
92898679 GCTCCTCGTT
* * *
92898689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
*
92898753 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
92898769 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
*
92898834 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * * *
92898848 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCAGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCACAAATGCCTTC-GGGCTTAGCC
92898909 CGGA
62 CGGA
92898913 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
78 9 0.07
79 62 0.48
80 55 0.43
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:92910914 original size:22 final size:22
Alignment explanation
Indices: 92910880--92910949 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
92910870 ATAGGGGTAA
* *
92910880 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* **
92910902 GATACGTTCTGATGCGAAATAT
1 GATACGCTCTGATATGAAATAT
* * *
92910924 AATATGCTCTGATATGAGATAT
1 GATACGCTCTGATATGAAATAT
92910946 GATA
1 GATA
92910950 AGCTTCAATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:92913720 original size:21 final size:19
Alignment explanation
Indices: 92913690--92913739 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
92913680 ATCGAGAACT
*
92913690 GTTTTAATTTAGTAATCTATG
1 GTTTTTATTTA-TAAT-TATG
*
92913711 GTTTTTATTTATAATTCTG
1 GTTTTTATTTATAATTATG
92913730 G-TTTTATTTA
1 GTTTTTATTTA
92913740 ACAATTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 4 0.15
21 10 0.37
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.60
Consensus pattern (19 bp):
GTTTTTATTTATAATTATG
Found at i:92913736 original size:18 final size:20
Alignment explanation
Indices: 92913690--92913739 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
92913680 ATCGAGAACT
92913690 GTTTTAATTTAGTAATCTATG
1 GTTTT-ATTTAGTAATCTATG
*
92913711 GTTTTTATTTA-TAAT-TCTG
1 G-TTTTATTTAGTAATCTATG
92913730 GTTTTATTTA
1 GTTTTATTTA
92913740 ACAATTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 4 0.15
20 4 0.15
21 6 0.22
22 4 0.15
ACGTcount: A:0.24, C:0.04, G:0.12, T:0.60
Consensus pattern (20 bp):
GTTTTATTTAGTAATCTATG
Found at i:92914153 original size:22 final size:22
Alignment explanation
Indices: 92914128--92914171 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
92914118 ATGTGGGTAA
92914128 GATATGCTATGATATGAAATAC
1 GATATGCTATGATATGAAATAC
* *
92914150 GATATGCTTTGATATGAGATAC
1 GATATGCTATGATATGAAATAC
92914172 TATAACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
GATATGCTATGATATGAAATAC
Found at i:92917183 original size:12 final size:12
Alignment explanation
Indices: 92917166--92917190 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92917156 TGAATCTTGG
92917166 TGGAAAATTGCT
1 TGGAAAATTGCT
92917178 TGGAAAATTGCT
1 TGGAAAATTGCT
92917190 T
1 T
92917191 TAATGGTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:92921044 original size:4 final size:4
Alignment explanation
Indices: 92921030--92921061 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
92921020 ATAACATTAA
92921030 AATT AATTT AATT AATT AATT AATT AATT AAT
1 AATT AA-TT AATT AATT AATT AATT AATT AAT
92921062 CTCCTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:92922702 original size:45 final size:45
Alignment explanation
Indices: 92922635--92922733 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
92922625 CACCTAAAAC
* *
92922635 GAGTAAGACCATAACTGAAAGATGCTATGGTATTATGATA-AAGAT
1 GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAA-AT
* * * *
92922680 GAGTAAGATCATAGCTGTAAGATGTTATGGCATCATGATATAAAT
1 GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAAAT
92922725 GAGTAAGAC
1 GAGTAAGAC
92922734 TATGGCTTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 44 0.96
46 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (45 bp):
GAGTAAGACCATAACTGAAAGATGCTATGGCATCATGATATAAAT
Found at i:92922946 original size:27 final size:27
Alignment explanation
Indices: 92922890--92922947 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
92922880 AGTCCAACGA
**
92922890 GACATTAAACACAAGATAGCTTGATGG
1 GACATTAAACACAAGATAGCTTGACAG
**
92922917 GACATTAAACACGGGATAG-TATGACAG
1 GACATTAAACACAAGATAGCT-TGACAG
92922944 GACA
1 GACA
92922948 CTGAACAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (27 bp):
GACATTAAACACAAGATAGCTTGACAG
Found at i:92933104 original size:30 final size:30
Alignment explanation
Indices: 92933058--92933181 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
92933048 TTTTATTATG
*
92933058 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
92933089 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
92933119 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
92933149 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
92933179 CCA
1 CCA
92933182 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:92933113 original size:15 final size:15
Alignment explanation
Indices: 92933068--92933175 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
92933058 CCAATATCTC
92933068 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
92933083 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
92933098 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
92933113 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
92933128 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
92933143 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
92933158 GATACCCATATCTTT
1 GATACCCATATCTTT
92933173 GAT
1 GAT
92933176 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:92949070 original size:3 final size:3
Alignment explanation
Indices: 92949062--92949136 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
92949052 GTAATAAAGG
* *
92949062 AAT AAT AAT CAT AAT AAT AAT AATT AAT AAC AA- ATAT AAT GAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT AAT -AAT AAT
* * *
92949109 AAC AGT AAT AAT AAT AAAG AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT
92949137 TAAAAATGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 1 0.02
3 48 0.83
4 9 0.16
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:92949100 original size:19 final size:21
Alignment explanation
Indices: 92949061--92949163 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 21
92949051 AGTAATAAAG
92949061 GAATAATAATCATAATAATAAT
1 GAATAATAA-CATAATAATAAT
92949083 -AATTAATAACA-AAT-ATAAT
1 GAA-TAATAACATAATAATAAT
92949102 GAATAATAACAGTAATAATAAT
1 GAATAATAACA-TAATAATAAT
* * *
92949124 AAAGAAT-A-ATAATTAAAAAT
1 GAATAATAACATAA-TAATAAT
*
92949144 GAATAAATAA-ATAAAAATAA
1 GAAT-AATAACATAATAATAA
92949164 AGGGTAAAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
19 16 0.24
20 14 0.21
21 15 0.23
22 21 0.32
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (21 bp):
GAATAATAACATAATAATAAT
Found at i:92949117 original size:16 final size:14
Alignment explanation
Indices: 92949048--92949136 Score: 64
Period size: 13 Copynumber: 6.6 Consensus size: 14
92949038 CAACCAACAA
* *
92949048 AATAGTAATAAAGG
1 AATAATAATAAAGT
*
92949062 AATAATAAT-CA-T
1 AATAATAATAAAGT
*
92949074 AATAATAAT-AATT
1 AATAATAATAAAGT
* *
92949087 AATAACAA-ATA-T
1 AATAATAATAAAGT
92949099 AATGAATAATAACAGT
1 AAT-AATAATAA-AGT
92949115 AATAATAATAAAG-
1 AATAATAATAAAGT
92949128 AATAATAAT
1 AATAATAAT
92949137 TAAAAATGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
12 14 0.23
13 23 0.38
14 11 0.18
15 9 0.15
16 4 0.07
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (14 bp):
AATAATAATAAAGT
Found at i:92949418 original size:20 final size:19
Alignment explanation
Indices: 92949388--92949443 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
92949378 GGAGATGGGA
92949388 GAAAGGAAAAGAAAGAGGAAG
1 GAAA-GAAAAGAAAG-GGAAG
92949409 GAAAGAAAAGAAAGGGAAG
1 GAAAGAAAAGAAAGGGAAG
92949428 GAAAGAAAAAGAAAGG
1 GAAAG-AAAAGAAAGG
92949444 AAAGAAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.29
20 20 0.59
21 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
GAAAGAAAAGAAAGGGAAG
Found at i:92949454 original size:15 final size:15
Alignment explanation
Indices: 92949393--92949454 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
92949383 TGGGAGAAAG
* *
92949393 GAAAAGAAAGAGGAA
1 GAAAGGAAAGAAGAA
* *
92949408 GGAAAGAAAAGAA-AG
1 -GAAAGGAAAGAAGAA
* *
92949423 GGAAGGAAAGAAAAA
1 GAAAGGAAAGAAGAA
92949438 GAAAGGAAAGAAGAA
1 GAAAGGAAAGAAGAA
92949453 GA
1 GA
92949455 GAAAGACAGC
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
14 10 0.28
15 17 0.47
16 9 0.25
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
GAAAGGAAAGAAGAA
Found at i:92953671 original size:387 final size:388
Alignment explanation
Indices: 92952950--92953713 Score: 1117
Period size: 387 Copynumber: 2.0 Consensus size: 388
92952940 ATGGTCGCTA
* *
92952950 AACTAACTAAAAATTCGACTAAGGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTTAGACC
1 AACTAACTAAAAATTCGACTAAGGCAAGAGCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
* * *
92953015 GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
66 GAAAATATCGTATCCACAAGAACTAAAAGTACTAGTAATTACTATCTTTTGATTATCTAGCCTAA
* * *
92953080 CAATTAAGAGAATGTTTTAAAATAAGACTAATTATCTAATGAACTAAAATTACGATAGAGATTAA
131 CAATTAAGAGAATGTTTTAAAATAAAAATAATTATCTAATGAACTAAAATTACGATAAAGATTAA
** ** * *
92953145 AGTTGGAAAATACTTTTTAGAAAACTGATGGAAAAGACAATACCCAAGGAAGAATCCATATAGAC
196 AGTTGGAAAATACTTTGGAGAAAACAAATGGAAAAGACAATACCCAAGGAAAAATCCACATAGAC
* * * *
92953210 TTCACTTATCACTTCTGAATTAGACGATTTATTCACTTGACTTAATCCGTATAAATCCCTGATTT
261 TTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAAAAATCCCTAATTT
92953275 ATGTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCGTGT
326 ATGTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCGTGT
* * *
92953338 AACTAACTAAAAATTCGAATTAAGGCAAGCGCACCTTTCGAACAGTAGTATAGTTATGGTGAGAC
1 AACTAACTAAAAATTCG-ACTAAGGCAAGAGCACCTATCGAACAGTAGTATAGTTATGGTGAGAC
** *
92953403 CGAAAATATCGTATCCATGAGAAGTAAAAGTACTAGTAATTACTATCTTTTGATTATCTAGCCTA
65 CGAAAATATCGTATCCACAAGAACTAAAAGTACTAGTAATTACTATCTTTTGATTATCTAGCCTA
** * * *
92953468 A-AATTAA-AGTGTGTTTTTAAAATAAAAATATTTATCTAATTAACTAAGATTACGA-AAAGA-T
130 ACAATTAAGAGAATG-TTTTAAAATAAAAATAATTATCTAATGAACTAAAATTACGATAAAGATT
* * *
92953529 GAAGTTTGGAAAATACTTTGG-GAGAAACAAATGGAGAAGACAATACCCAAGGAAAAATCCACCT
194 AAAG-TTGGAAAATACTTTGGAGA-AAACAAATGGAAAAGACAATACCCAAGGAAAAATCCACAT
*
92953593 AGACTTCACTTAGT-ACTTCTGAATTAGACAATTTATTCACTTAACTTAATTCGTAAAAATCCCT
257 AGACTTCACTTA-TCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAAAAATCCCT
* * *
92953657 AATTTATTTTAATATCTCTCTCGAGACTAAGAACAACTGACTTTAGGTTGATTAATT
321 AATTTATGTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATT
92953714 AAAATCTCTT
Statistics
Matches: 335, Mismatches: 36, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
386 6 0.02
387 167 0.50
388 60 0.18
389 102 0.30
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.31
Consensus pattern (388 bp):
AACTAACTAAAAATTCGACTAAGGCAAGAGCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
GAAAATATCGTATCCACAAGAACTAAAAGTACTAGTAATTACTATCTTTTGATTATCTAGCCTAA
CAATTAAGAGAATGTTTTAAAATAAAAATAATTATCTAATGAACTAAAATTACGATAAAGATTAA
AGTTGGAAAATACTTTGGAGAAAACAAATGGAAAAGACAATACCCAAGGAAAAATCCACATAGAC
TTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAAAAATCCCTAATTT
ATGTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCGTGT
Found at i:92956644 original size:11 final size:10
Alignment explanation
Indices: 92956618--92956694 Score: 58
Period size: 11 Copynumber: 8.0 Consensus size: 10
92956608 AGGAGGGAAG
* *
92956618 AAGAAAGGGT
1 AAGAAAGAGA
92956628 AAGAAAGAGCA
1 AAGAAAGAG-A
92956639 AAG-AA-AGA
1 AAGAAAGAGA
92956647 AAGAAGAGAGA
1 AAGAA-AGAGA
92956658 AAG-AA-AGA
1 AAGAAAGAGA
92956666 AAGAAA-A-A
1 AAGAAAGAGA
*
92956674 AAGGAAGAGA
1 AAGAAAGAGA
92956684 AGAGAAAGAGA
1 A-AGAAAGAGA
92956695 GGGGGGTTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
8 16 0.29
9 8 0.15
10 14 0.25
11 17 0.31
ACGTcount: A:0.66, C:0.01, G:0.31, T:0.01
Consensus pattern (10 bp):
AAGAAAGAGA
Done.